TABLE 3.

Acid-responsive genes affected by either HP0165 or HP1364 mutation^a

Acid-induced genes				Acid-repressed genes
Not acid-responsive in J99-165Km		Not acid-responsive in J99-1364Km		Not acid-responsive in J99-165Km		Not acid-responsive in J99-1364Km
Geneb	Indexc	Gene	Index	Gene	Index	Gene	Index
HP0045	2.1	HP0045	2.0	HP0067	0.5	HP0067	0.5
HP0060	1.8	HP0060	2.1	HP0159 (40)	0.4	HP0192	0.4
HP0072 (8, 24, 40)	2.0	HP0072 (8, 24, 40)	1.8	HP0192	0.4	HP0224	0.8
HP0073 (8, 24, 40)	2.0	HP0073 (8, 24, 40)	2.0	HP0224	0.6	HP0259	0.7
HP0093 (40)	2.0	HP0093 (40)	1.7	HP0229 (8, 24, 40)	0.5	HP0288	0.7
HP0109	1.4	HP0109	1.2	HP0259	0.6	HP0362	0.7
HP0110	1.4	HP0110	1.3	HP0288	0.3	HP0454	0.7
HP0118 (8, 24)	2.3	HP0129	1.7	HP0362	0.4	HP0464	0.8
HP0119 (8, 24)	3.9	HP0148 (8, 40)	1.5	HP0365	0.4	HP0512 (40)	0.6
HP0148 (8, 40)	2.4	HP0225	1.4	HP0454	0.6	HP0523	0.7
HP0225	1.9	HP0294 (8, 24, 40)	2.0	HP0464	0.7	HP0555	0.6
HP0294 (8, 24, 40)	1.4	HP0460	1.6	HP0523	0.3	HP0579	0.5
HP0490	2.0	HP0490	2.4	HP0555	0.6	HP0633	0.6
HP0513	1.5	HP0513	1.5	HP0579	0.5	HP0635	0.6
HP0531	1.3	HP0642 (8, 24, 40)	2.5	HP0623	0.3	HP0656	0.5
HP0668	1.3	HP0668	1.3	HP0633	0.3	HP0675	0.4
HP0708	2.1	HP0682 (40)	2.2	HP0635	0.4	HP0700	0.6
HP0723 (40)	1.9	HP0708	1.6	HP0637 (24)	0.6	HP0827 (40)	0.3
HP0756	3.1	HP0723 (40)	2.0	HP0656	0.5	HP0851	0.7
HP0772	2.1	HP0807	1.7	HP0675	0.4	HP0906	0.1
HP0807	1.8	HP0900 (40)	1.4	HP0700	0.6	HP1045 (24)	0.6
HP0900 (40)	1.7	HP0948 (40)	2.9	HP0827 (40)	0.3	HP1071	0.5
HP0948 (40)	1.8	HP1019 (24)	1.5	HP0851	0.6	HP1177 (8, 24, 40)	0.6
HP1001	2.0	HP1104 (40)	1.2	HP0985	0.4	HP1205 (40)	0.7
HP1019 (24)	2.1	HP1203 (24)	2.0	HP1045 (24)	0.5	HP1240	0.5
HP1084	1.8	HP1238 (24, 40)	2.0	HP1071	0.7	HP1256	0.7
HP1192 (8, 40)	2.7	HP1317	1.5	HP1177 (8, 24, 40)	0.4	HP1270	0.6
HP1203 (24)	2.3	HP1329	2.3	HP1240	0.4	HP1367	0.6
HP1238 (24, 40)	2.8	HP1405 (8)	1.6	HP1270	0.4	HP1385	0.4
HP1319	3.8	HP1475	2.1	HP1366	0.4	HP1390	0.4
HP1432 (8, 24)	2.0			HP1367	0.4	HP1501 (8, 24, 40)	0.6
HP1455	2.5			HP1385	0.4	HP1526 (24)	0.6
HP1475	1.9			HP1390	0.6	JHP0164	0.4
				HP1526 (24)	0.7
				JHP0164	0.5

^aIn an analysis of wild-type H. pylori strain J99, all the genes listed in this table had pH 5/pH 7 expression ratios >2 SDs higher or lower than the mean pH 5/pH 7 ratio of all arrayed genes. In contrast, in an analysis of strain J99-165Km or J99-1364Km, the genes listed in this table were not acid responsive.

^bReferences in parentheses indicate acid-regulated genes identified by Bury-Mone et al. (8), Merrell et al. (24), or Wen et al. (40).

^cAn index value was calculated for each gene by dividing the pH 5/pH 7 expression ratio for the wild-type strain by the pH 5/pH 7 ratio for the indicated mutant strain.